Locus 8058

Sequence ID	3L_DroMel_CAF1
Location	21,249,347 – 21,249,437
Length	90
Max. P	0.972353

overview

Window 8

Location	21,249,347 – 21,249,437
Length	90
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	79.66
Mean single sequence MFE	-29.83
Consensus MFE	-18.02
Energy contribution	-19.85
Covariance contribution	1.83
Combinations/Pair	1.07
Mean z-score	-2.83
Structure conservation index	0.60
SVM decision value	1.53
SVM RNA-class probability	0.961364
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21249347 90 + 23771897
CAUAGGAUUUAAGUAAUGAGUCUAUGGGCUCGAU--------UUGGAAUUAUC-UGUGCACUGCACCGCUCUGAACCCAUAAAGGCAGCACUUGAGUCU
....((((((((((..((..(.((((((.(((((--------........)))-.((((...))))......)).)))))).)..))..)))))))))) ( -25.20)
>DroPse_CAF1 6762 99 + 1
UCUUUGGGAUAAGUGCUGCAUCUAUGGGUUCCAUGCAUUAUUAUGGAAUUAUCUUGUGCACUGCACCGUACAGAACCCAUACAGGCAGCACUUGGGGAU
.........((((((((((...(((((((((((((......))))))....(((.((((........))))))))))))))...))))))))))..... ( -37.10)
>DroSec_CAF1 7422 90 + 1
CAUUGGAUUUAAGUAAUGAGUCUAUGGGCUCGAU--------UUGGAAUUAUC-UGUGCACUGCACAGCUCUAAACCCAUAAAGUCAGCUCUUGAGUCU
....(((((((((...(((.(.((((((.....(--------(((((.....(-(((((...)))))).)))))))))))).).)))...))))))))) ( -29.20)
>DroSim_CAF1 7454 90 + 1
CAUUGGAUUUAAGUAAUGAGUCUAUGGGUUCGAU--------UUGGAAUUAUC-CGUGCACUGCACAGCUCUGAACCCAUAAAGUCAGCACUUGAGUCU
....((((((((((..(((.(.((((((((((..--------..(((....))-)((((...)))).....)))))))))).).)))..)))))))))) ( -35.30)
>DroEre_CAF1 7370 90 + 1
CAUAGGGUUUAAGUAAUAAGUCUAUGGGCUCGAU--------UUGGAAUUAUC-UGUGCACUGCACCGCUCUGAACCCAUAAAGUCAGCACUUGAGCCU
....((((((((((........((((((.(((((--------........)))-.((((...))))......)).))))))........)))))))))) ( -23.89)
>DroPer_CAF1 6773 99 + 1
UCUUUGGGAUAAGUAUUGCAUUUAUGGGUUCCAUGCAUUAUUAUGGAAUUGUCUUGUGCACUGCACCGUACAGAACCCAUACAGGCAGCACUUGGGGGU
.........(((((.((((...(((((((((((((......))))))....(((.((((........))))))))))))))...)))).)))))..... ( -28.30)
>consensus
CAUUGGAUUUAAGUAAUGAGUCUAUGGGCUCGAU________UUGGAAUUAUC_UGUGCACUGCACCGCUCUGAACCCAUAAAGGCAGCACUUGAGUCU
....((((((((((..(((.(.((((((.((..............((....))..((((...))))......)).)))))).).)))..)))))))))) (-18.02 = -19.85 +   1.83)

alignment

secondary structure

dotplot

Window 9

Location	21,249,347 – 21,249,437
Length	90
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	79.66
Mean single sequence MFE	-28.47
Consensus MFE	-24.53
Energy contribution	-24.20
Covariance contribution	-0.33
Combinations/Pair	1.20
Mean z-score	-3.14
Structure conservation index	0.86
SVM decision value	1.69
SVM RNA-class probability	0.972353
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21249347 90 - 23771897
AGACUCAAGUGCUGCCUUUAUGGGUUCAGAGCGGUGCAGUGCACA-GAUAAUUCCAA--------AUCGAGCCCAUAGACUCAUUACUUAAAUCCUAUG
......(((((.((..(((((((((((......((((...)))).-(((........--------))))))))))))))..)).))))).......... ( -25.40)
>DroPse_CAF1 6762 99 - 1
AUCCCCAAGUGCUGCCUGUAUGGGUUCUGUACGGUGCAGUGCACAAGAUAAUUCCAUAAUAAUGCAUGGAACCCAUAGAUGCAGCACUUAUCCCAAAGA
......(((((((((.(.((((((((((((.((((((...))))..((....))........)).)))))))))))).).))))))))).......... ( -36.80)
>DroSec_CAF1 7422 90 - 1
AGACUCAAGAGCUGACUUUAUGGGUUUAGAGCUGUGCAGUGCACA-GAUAAUUCCAA--------AUCGAGCCCAUAGACUCAUUACUUAAAUCCAAUG
......(((...(((.(((((((((((.((.((((((...)))))-)..........--------.))))))))))))).)))...))).......... ( -23.00)
>DroSim_CAF1 7454 90 - 1
AGACUCAAGUGCUGACUUUAUGGGUUCAGAGCUGUGCAGUGCACG-GAUAAUUCCAA--------AUCGAACCCAUAGACUCAUUACUUAAAUCCAAUG
......(((((.(((.(((((((((((......((((...))))(-((....)))..--------...))))))))))).))).))))).......... ( -30.60)
>DroEre_CAF1 7370 90 - 1
AGGCUCAAGUGCUGACUUUAUGGGUUCAGAGCGGUGCAGUGCACA-GAUAAUUCCAA--------AUCGAGCCCAUAGACUUAUUACUUAAACCCUAUG
(((...(((((.(((.(((((((((((......((((...)))).-(((........--------)))))))))))))).))).)))))....)))... ( -27.20)
>DroPer_CAF1 6773 99 - 1
ACCCCCAAGUGCUGCCUGUAUGGGUUCUGUACGGUGCAGUGCACAAGACAAUUCCAUAAUAAUGCAUGGAACCCAUAAAUGCAAUACUUAUCCCAAAGA
......(((((.(((...((((((((((((...((((...))))...)))....(((........))))))))))))...))).))))).......... ( -27.80)
>consensus
AGACUCAAGUGCUGACUUUAUGGGUUCAGAGCGGUGCAGUGCACA_GAUAAUUCCAA________AUCGAACCCAUAGACUCAUUACUUAAACCCAAUG
......(((((.(((.(((((((((((......((((...))))..((....))..............))))))))))).))).))))).......... (-24.53 = -24.20 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:08 2006